pycom08g15850

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr8
OG0000562
Physical Location & Seq
Forward (+)
15650247 .. 15650522
276 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom08g15850.1

Sequence Viewer

Length: 276 bp
ATGTCTCTTACTCTCGGAGACAAAGGGAAATTAGGGTTTGTAAATGGAAGTGTGGAAGCTCCAGACATCTTTTCCTCGACATATGGTGCATGGCTTTGCAAGGATCAACTTGTCATGTCTTTGCTGCTCAACACCATGGAGAAACATGTTGCTGAGATTTTTAGCTACTACAATTCTTCATGTGAGCTTTGGAAAGCGTTGCAGGATATGTATGGAAATCAAAACAACTATGCACGTGTCTTTCAACTTAAGAAGGACATTGCCAGTGCCCAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Retrotran_gag_2 Retrotran_gag_3

Protein Analysis

92

Amino Acids

10.24

Weight (kDa)

5.65

Isoelectric Point (pI)

35.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 1 - 84 2.2e-06 gag-polypeptide of LTR copia-type
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000562)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g17331 FvH4_3g36541
malus_domestica MD07G1078600.v1.1 MD10G1237700.v1.1 MD10G1333400.v1.1 MD11G1102200.v1.1 MD13G1138400.v1.1 MD14G1033400.v1.1 MD15G1053300.v1.1
prunus_persica Prupe.1G465400_v2.0.a1 Prupe.3G136000_v2.0.a1 Prupe.7G119900_v2.0.a1
pyrus_communis pycom01g04630 pycom03g13050 pycom04g21190 pycom05g04910 pycom05g05510 pycom08g15850 pycom09g15040 pycom1094g00010 pycom11g02000 pycom12g06150 pycom13g24110 pycom13g24910 pycom14g00050 pycom15g21970 pycom15g35170 pycom15g35180 pycom16g14620 pycom16g14630 pycom808g00110
rosa_chinensis RchiOBHm_Chr1g0322851 RchiOBHm_Chr1g0365941 RchiOBHm_Chr3g0453341 RchiOBHm_Chr4g0388371 RchiOBHm_Chr4g0394021 RchiOBHm_Chr5g0013181 RchiOBHm_Chr6g0261721 RchiOBHm_Chr6g0261731 RchiOBHm_Chr7g0188861 RchiOBHm_Chr7g0192331 RchiOBHm_Chr7g0231721
rosa_multiflora Rmu_sc0002521.1_g000006 Rmu_sc0003255.1_g000026 Rmu_sc0004191.1_g000036 Rmu_sc0004414.1_g000014 Rmu_sc0005670.1_g000006 Rmu_sc0006081.1_g000001 Rmu_sc0007215.1_g000004 Rmu_sc0010088.1_g000010 Rmu_sc0020285.1_g000003 Rmu_sc0026896.1_g000002 Rmu_ssc0000019.1_g000029
rosa_roxburghii Rroxscaffold_3G00224890 Rroxscaffold_6G00400640 Rroxscaffold_7G00176590 Rroxscaffold_7G00189230
rosa_samantha Rh4BG046700
rosa_wichuraiana Rw1G012690 Rw1G031370 Rw2G042180 Rw2G043670 Rw2G046240 Rw2G049890 Rw2G050760 Rw2G051280 Rw2G053590 Rw3G007590 Rw3G026850 Rw4G001540 Rw4G009760 Rw4G019270 Rw5G000720 Rw5G005620 Rw5G041560 Rw6G007370 Rw6G009830 Rw6G015360 Rw6G031160 Rw7G004930 Rw7G011010 Rw7G024230 Rw7G028240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 111
AcvI CACGTG 1 cut(s) 236
AflII CTTAAG 1 cut(s) 248
AflIII ACRYGT 2 cut(s) 145, 235
AgsI TTSAA 1 cut(s) 245
AluBI AGCT 3 cut(s) 59, 165, 187
AluI AGCT 3 cut(s) 59, 165, 187
Alw26I GTCTC 2 cut(s) 9, 12
AlwI GGATC 1 cut(s) 111
ApeKI GCWGC 1 cut(s) 124
BaeGI GKGCMC 1 cut(s) 271
BbrPI CACGTG 1 cut(s) 236
BbvI GCAGC 1 cut(s) 111
BcoDI GTCTC 2 cut(s) 9, 12
BfrI CTTAAG 1 cut(s) 248
BisI GCNGC 1 cut(s) 125
BlsI GCNGC 1 cut(s) 126
BpmI CTGGAG 1 cut(s) 45
BsaAI YACGTR 1 cut(s) 236
BsaJI CCNNGG 1 cut(s) 135
Bse1I ACTGG 1 cut(s) 264
Bse3DI GCAATG 1 cut(s) 258
BseDI CCNNGG 1 cut(s) 135
BseMI GCAATG 1 cut(s) 258
BseMII CTCAG 1 cut(s) 144
BseNI ACTGG 1 cut(s) 264
BseSI GKGCMC 1 cut(s) 271
BseXI GCAGC 1 cut(s) 111
BsmAI GTCTC 2 cut(s) 9, 12
Bsp1286I GDGCHC 1 cut(s) 271
Bsp143I GATC 1 cut(s) 103
Bsp19I CCATGG 1 cut(s) 135
BspCNI CTCAG 1 cut(s) 145
BspPI GGATC 1 cut(s) 111
BspTI CTTAAG 1 cut(s) 248
BsrDI GCAATG 1 cut(s) 258
BsrI ACTGG 1 cut(s) 264
BssECI CCNNGG 1 cut(s) 135
BssMI GATC 1 cut(s) 103
BssT1I CCWWGG 1 cut(s) 135
BstAFI CTTAAG 1 cut(s) 248
BstBAI YACGTR 1 cut(s) 236
BstDEI CTNAG 1 cut(s) 153
BstDSI CCRYGG 1 cut(s) 135
BstKTI GATC 1 cut(s) 106
BstMAI GTCTC 2 cut(s) 9, 12
BstMBI GATC 1 cut(s) 103
BstNSI RCATGY 1 cut(s) 149
BstSLI GKGCMC 1 cut(s) 271
BstV1I GCAGC 1 cut(s) 111
BtgI CCRYGG 1 cut(s) 135
BtsIMutI CAGTG 1 cut(s) 271
CviAII CATG 5 cut(s) 90, 115, 136, 146, 180
CviJI RGCY 4 cut(s) 59, 94, 165, 187
CviKI_1 RGCY 4 cut(s) 59, 94, 165, 187
DdeI CTNAG 1 cut(s) 153
DpnI GATC 1 cut(s) 105
DpnII GATC 1 cut(s) 103
Eco130I CCWWGG 1 cut(s) 135
Eco72I CACGTG 1 cut(s) 236
EcoT14I CCWWGG 1 cut(s) 135
ErhI CCWWGG 1 cut(s) 135
FaeI CATG 5 cut(s) 93, 118, 139, 149, 183
FatI CATG 5 cut(s) 89, 114, 135, 145, 179
FauNDI CATATG 1 cut(s) 82
Fnu4HI GCNGC 1 cut(s) 125
Fsp4HI GCNGC 1 cut(s) 125
GluI GCNGC 1 cut(s) 125
GsuI CTGGAG 1 cut(s) 45
Hin1II CATG 5 cut(s) 93, 118, 139, 149, 183
Hpy188I TCNGA 1 cut(s) 17
Hpy188III TCNNGA 1 cut(s) 62
HpyAV CCTTC 1 cut(s) 247
HpyCH4IV ACGT 1 cut(s) 235
HpyCH4V TGCA 4 cut(s) 89, 99, 202, 233
HpyF3I CTNAG 1 cut(s) 153
HpySE526I ACGT 1 cut(s) 235
Hsp92II CATG 5 cut(s) 93, 118, 139, 149, 183
Kzo9I GATC 1 cut(s) 103
LmnI GCTCC 1 cut(s) 64
LpnPI CCDG 2 cut(s) 75, 188
Lsp1109I GCAGC 1 cut(s) 111
MaeII ACGT 1 cut(s) 235
MalI GATC 1 cut(s) 105
MboI GATC 1 cut(s) 103
MboII GAAGA 1 cut(s) 168
MhlI GDGCHC 1 cut(s) 271
MluCI AATT 2 cut(s) 29, 172
MnlI CCTC 1 cut(s) 85
MseI TTAA 1 cut(s) 249
MspCI CTTAAG 1 cut(s) 248
NcoI CCATGG 1 cut(s) 135
NdeI CATATG 1 cut(s) 82
NdeII GATC 1 cut(s) 103
NlaIII CATG 5 cut(s) 93, 118, 139, 149, 183
NspI RCATGY 1 cut(s) 149
PciI ACATGT 1 cut(s) 145
PkrI GCNGC 1 cut(s) 126
PmaCI CACGTG 1 cut(s) 236
PmlI CACGTG 1 cut(s) 236
Ppu21I YACGTR 1 cut(s) 236
PscI ACATGT 1 cut(s) 145
PspCI CACGTG 1 cut(s) 236
SaqAI TTAA 1 cut(s) 249
SatI GCNGC 1 cut(s) 125
Sau3AI GATC 1 cut(s) 103
SduI GDGCHC 1 cut(s) 271
SetI ASST 4 cut(s) 61, 167, 189, 238
SmlI CTYRAG 1 cut(s) 248
SmoI CTYRAG 1 cut(s) 248
Sse9I AATT 2 cut(s) 29, 172
StyI CCWWGG 1 cut(s) 135
TaiI ACGT 1 cut(s) 238
TaqI TCGA 1 cut(s) 77
TasI AATT 2 cut(s) 29, 172
Tru1I TTAA 1 cut(s) 249
Tru9I TTAA 1 cut(s) 249
TscAI CASTG 1 cut(s) 271
TseI GCWGC 1 cut(s) 124
TspDTI ATGAA 1 cut(s) 168
TspRI CASTG 1 cut(s) 271
Vha464I CTTAAG 1 cut(s) 248
XceI RCATGY 1 cut(s) 149
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.